RnoINT0169479 @ rn6
Intron Retention
Gene
ENSRNOG00000039234 | Zscan21
Description
zinc finger and SCAN domain containing 21 [Source:RGD Symbol;Acc:1309981]
Coordinates
chr12:19268007-19269618:+
Coord C1 exon
chr12:19268007-19268721
Coord A exon
chr12:19268722-19269428
Coord C2 exon
chr12:19269429-19269618
Length
707 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGC
5' ss Score
8.07
3' ss Seq
GCCATTTCTTACTGTCCTAGGTC
3' ss Score
9.38
Exon sequences
Seq C1 exon
GTTTGGAGTGTGGCACTTTAAGAACCAGAAACCCAAAGGCTCCAGGCCTACTCCTAAGAGTCCTGCTGGTTCTGGAGTCTGTGTCATGACCAAGGTGGTGGGCATGGCCACAGTTCTGGGCCCCAGGCCACCTCAGGAGTCTATGGGACCTTCGCCCATTAAAGTTGAAGAGGATGAAGAAAAAGACAAGTGCCGCCCTAGCCTAGAGCTATCCCGAAAGCGCTTCAGGCAGTCTAGAAACCAGGACACTCTTGAGCCAATGGGACCTTCAACCATTAAAGCTGAAGAGGAGGAAGACAAGGACAAGGGCCACCCTAGCCTAGAGCTATCCCGTAAGAGCTTCAAGCAGTTTGGGTACCATGACACTTTGGAACAGTTGGGACCTTCGACTGTTAAAGCTGAAGAGGATGAAGAGAAGGACAAGGGCCGCCCTAGCCTAGAGATATCCCGTCAGCGCTTCAGGCAGTTTGGGTACCATGACACTCCTGGGCCCCGAGAGGCACTGAGCCAGCTTCGGGTGCTCTGCTGTGAGTGGCTACAGCCTGAGATCCACACCAAGGAGCAGATTCTAGAGCTACTGGTTCTGGAGCAGTTCCTGACCATCCTGCCCCGAGAGCTCCAGGCCTGGGTACAGCAGCACTGCCCTGAGAGTGCAGAGGAGGCCGTCACTCTCCTGGAAGACCTGGAGCAAGAACTGGATGAGCCTGGACTGCAG
Seq A exon
GTGGGCGGGAGGCCCTCAGATGCTAGGAGACCCAGAACATAACTTTCTAGGCAGCAATCAGGGCTTGTCCTTCCGTTGTATGTAAAACGTTCCCTGGGGAGATGTGATACACACATCTGCTCAGCCCCATAGGGAATCCATGGCAGACTGTACAGGTACCATCAAAGTCCAGTTTGGTAAACTTGGACTTTTATTGGGGTTACGTAATGGGAATGTGGGTGAGGGATTACTTACAGGAGCAGAAATGACTCAAAGACAGCTGCATCACCAAAGCCCACCCCAACATTTGTGACAGATCACAGATCAGCTAGATGTACCTGGAGCATAGGCATGGCTCAGCAGGTTAGAGAGTGTCCTGTTTCAGGCGGCTTAGCTGGTCTGCATTTCCTTTGCAGCTCTGTTCCTAGTCTCAGAGGAACTCTTCCTGTTATTGCTTATTCTGGCAGGAAGGAGCCTGGTAAATCTGGTCAGTTTCAGTGACTTCCTGAAGCTAGTTTAAGTTGTTTACCTTCCTGTAGGCTGGAAGGCAGAAACTACTCAGCACTGTCCAATAAGATTAACCAGACAGAATTTTCCGGGGAGCTGGATCATGTTTCTCCCTATTATCCACTTTTGTCTTGAAGTAGCCTTGGGAACCAAGTGGGATGGGCATAAAAAGGTCTGCATAGCTCGCATTGCATATACCCAGCCATTTCTTACTGTCCTAG
Seq C2 exon
GTCTCATCTCCAAATGAACAGAAGCAGTCTTGGGAGAAAATATCAACTTCAGGAACTGCAATGGAGTCCTTAAGCAGCACTGAGACCCAGCCTGTGGATGCCAGCCCTAAATATGAGTTTTGGGGGCCCCTGTACATCCAAGAGACTGGTGAAGAGGAGGTTTTCACTCAGGACCCAAGAAAGCGCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000039234:ENSRNOT00000001810:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.643 A=NA C2=0.797
Domain overlap (PFAM):
C1:
PF0202312=SCAN=PU(97.9=44.8)
A:
NA
C2:
PF0202312=SCAN=PD(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAGATCCACACCAAGGAGCA
R:
CGCTTTCTTGGGTCCTGAGTG
Band lengths:
357-1064
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]